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Open data
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Basic information
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Title | Cryo-EM structure of H2AK119-UbcH5b-Ub nucleosome | |||||||||
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Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.46 Å | |||||||||
![]() | Ai HS / Zebing T / Zhiheng D / Jiakun T / Liying Z / Jia-Bin L / Man P / Liu L | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Synthetic E2-Ub-nucleosome conjugates for studying nucleosome ubiquitination. Authors: Ai HS / Tong Z / Deng Z / Tian J / Zhang L / Sun M / Du Y / Xu Z / Shi Q / Liang L / Zheng Q / Li JB / Pan M / Liu L | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 59.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 16.1 KB 16.1 KB | Display Display | ![]() |
Images | ![]() | 67.3 KB | ||
Masks | ![]() | 64 MB | ![]() | |
Others | ![]() ![]() ![]() ![]() | 49.6 MB 59.8 MB 49.7 MB 49.7 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1002 KB | Display | ![]() |
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Full document | ![]() | 1001.6 KB | Display | |
Data in XML | ![]() | 12.1 KB | Display | |
Data in CIF | ![]() | 14.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
EMDB pages | ![]() ![]() |
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Map
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Voxel size | X=Y=Z: 0.836 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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Projections & Slices |
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Density Histograms |
-Additional map: #1
File | emd_34208_additional_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Additional map: This is the H2AK119-UbcH5b-Ub nucleosome map in which...
File | emd_34208_additional_2.map | ||||||||||||
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Annotation | This is the H2AK119-UbcH5b-Ub nucleosome map in which the UbcH5b-Ub was visible. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_34208_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_34208_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : H2AK119-UbcH5b-Ub nucleosome
Entire | Name: H2AK119-UbcH5b-Ub nucleosome |
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Components |
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-Supramolecule #1: H2AK119-UbcH5b-Ub nucleosome
Supramolecule | Name: H2AK119-UbcH5b-Ub nucleosome / type: complex / ID: 1 / Chimera: Yes / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TECNAI ARCTICA |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.8 µm / Nominal defocus min: 0.5 µm |
Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |
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Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 4.46 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 42473 |
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Initial angle assignment | Type: ANGULAR RECONSTITUTION |
Final angle assignment | Type: ANGULAR RECONSTITUTION |